Characterizing the gut microbiome of diarrheal mink under farmed conditions: A metagenomic analysis
This study aimed to comprehensively characterize the gut microbiota in diarrheal mink. We conducted Shotgun metagenomic sequencing on samples from five groups of diarrheal mink and five groups of healthy mink. The microbiota α-diversity and Kyoto Encyclopedia of Genes and Genomes (KEGG) orthology di...
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| creator | Liu, Shuo Ren, Jianwei Li, Jiyuan Yu, Detao Xu, Hang He, Fang Li, Nianfeng Zou, Ling Cao, Zhi Wen, Jianxin |
| description | This study aimed to comprehensively characterize the gut microbiota in diarrheal mink. We conducted Shotgun metagenomic sequencing on samples from five groups of diarrheal mink and five groups of healthy mink. The microbiota α-diversity and Kyoto Encyclopedia of Genes and Genomes (KEGG) orthology did not show significant differences between the groups. However, significant differences were observed in microbiota β-diversity and the function of carbohydrate-active enzymes (CAZymes) between diarrheal and healthy mink. Specifically, The relative abundance of Firmicutes was lower, whereas that of Bacteroidetes was higher in diarrheal mink. Fusobacteria were enriched as invasive bacteria in the gut of diarrheal mink compared with healthy mink. In addition, Escherichia albertii was identified as a new bacterium in diarrheal mink. Regarding functions, nicotinate and nicotinamide metabolism and glycoside hydrolases 2 (GH2) family were the enhanced KEGG orthology and CAZymes in diarrheal mink. Furthermore, the diversity and number of antibiotic-resistant genes were significantly higher in the diarrheal mink group than in the healthy group. These findings enhance our understanding of the gut microbiota of adult mink and may lead to new approaches to the diagnosis and treatment of mink diarrhea. |
| doi_str_mv | 10.1371/journal.pone.0312821 |
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We conducted Shotgun metagenomic sequencing on samples from five groups of diarrheal mink and five groups of healthy mink. The microbiota α-diversity and Kyoto Encyclopedia of Genes and Genomes (KEGG) orthology did not show significant differences between the groups. However, significant differences were observed in microbiota β-diversity and the function of carbohydrate-active enzymes (CAZymes) between diarrheal and healthy mink. Specifically, The relative abundance of Firmicutes was lower, whereas that of Bacteroidetes was higher in diarrheal mink. Fusobacteria were enriched as invasive bacteria in the gut of diarrheal mink compared with healthy mink. In addition, Escherichia albertii was identified as a new bacterium in diarrheal mink. Regarding functions, nicotinate and nicotinamide metabolism and glycoside hydrolases 2 (GH2) family were the enhanced KEGG orthology and CAZymes in diarrheal mink. Furthermore, the diversity and number of antibiotic-resistant genes were significantly higher in the diarrheal mink group than in the healthy group. These findings enhance our understanding of the gut microbiota of adult mink and may lead to new approaches to the diagnosis and treatment of mink diarrhea.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0312821</identifier><identifier>PMID: 39475924</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Analysis ; Animals ; Antibiotic resistance ; Antibiotics ; Bacteria ; Bacteria - classification ; Bacteria - genetics ; Bacteria - isolation & purification ; Bacteroidetes - genetics ; Bacteroidetes - isolation & purification ; Biology and Life Sciences ; Carbohydrates ; Care and treatment ; Coliforms ; Diagnosis ; Diarrhea ; Diarrhea - microbiology ; Diarrhea - veterinary ; Diseases ; Drug resistance ; Drug resistance in microorganisms ; E coli ; Enzymes ; Farms ; Feces ; Feces - microbiology ; Gastrointestinal Microbiome - genetics ; Gene sequencing ; Genes ; Genomics ; Glycosidases ; Glycoside hydrolase ; Glycosides ; Intestinal microflora ; Medicine and Health Sciences ; Metagenome ; Metagenomics ; Metagenomics - methods ; Microbiomes ; Microbiota ; Microbiota (Symbiotic organisms) ; Microorganisms ; Mink - microbiology ; Minks ; Niacinamide ; Nicotinamide ; Orthology ; Physical Sciences ; Physiology ; Proteins ; Relative abundance ; Research and Analysis Methods ; Sample size ; Software ; Tetracycline ; Tetracyclines</subject><ispartof>PloS one, 2024-10, Vol.19 (10), p.e0312821</ispartof><rights>Copyright: © 2024 Liu et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.</rights><rights>COPYRIGHT 2024 Public Library of Science</rights><rights>2024 Liu et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2024 Liu et al 2024 Liu et al</rights><rights>2024 Liu et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><cites>FETCH-LOGICAL-c460t-ae221622a0bb49d1137c37588c8c4426fa4b5aa7f77e8855eb91a9892ed5350f3</cites><orcidid>0000-0002-0434-6055 ; 0009-0005-4717-8329</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC11524518/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC11524518/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,860,881,2915,23845,27901,27902,53766,53768,79342,79343</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/39475924$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Liu, Shuo</creatorcontrib><creatorcontrib>Ren, Jianwei</creatorcontrib><creatorcontrib>Li, Jiyuan</creatorcontrib><creatorcontrib>Yu, Detao</creatorcontrib><creatorcontrib>Xu, Hang</creatorcontrib><creatorcontrib>He, Fang</creatorcontrib><creatorcontrib>Li, Nianfeng</creatorcontrib><creatorcontrib>Zou, Ling</creatorcontrib><creatorcontrib>Cao, Zhi</creatorcontrib><creatorcontrib>Wen, Jianxin</creatorcontrib><title>Characterizing the gut microbiome of diarrheal mink under farmed conditions: A metagenomic analysis</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>This study aimed to comprehensively characterize the gut microbiota in diarrheal mink. We conducted Shotgun metagenomic sequencing on samples from five groups of diarrheal mink and five groups of healthy mink. The microbiota α-diversity and Kyoto Encyclopedia of Genes and Genomes (KEGG) orthology did not show significant differences between the groups. However, significant differences were observed in microbiota β-diversity and the function of carbohydrate-active enzymes (CAZymes) between diarrheal and healthy mink. Specifically, The relative abundance of Firmicutes was lower, whereas that of Bacteroidetes was higher in diarrheal mink. Fusobacteria were enriched as invasive bacteria in the gut of diarrheal mink compared with healthy mink. In addition, Escherichia albertii was identified as a new bacterium in diarrheal mink. Regarding functions, nicotinate and nicotinamide metabolism and glycoside hydrolases 2 (GH2) family were the enhanced KEGG orthology and CAZymes in diarrheal mink. Furthermore, the diversity and number of antibiotic-resistant genes were significantly higher in the diarrheal mink group than in the healthy group. These findings enhance our understanding of the gut microbiota of adult mink and may lead to new approaches to the diagnosis and treatment of mink diarrhea.</description><subject>Analysis</subject><subject>Animals</subject><subject>Antibiotic resistance</subject><subject>Antibiotics</subject><subject>Bacteria</subject><subject>Bacteria - classification</subject><subject>Bacteria - genetics</subject><subject>Bacteria - isolation & purification</subject><subject>Bacteroidetes - genetics</subject><subject>Bacteroidetes - isolation & purification</subject><subject>Biology and Life Sciences</subject><subject>Carbohydrates</subject><subject>Care and treatment</subject><subject>Coliforms</subject><subject>Diagnosis</subject><subject>Diarrhea</subject><subject>Diarrhea - microbiology</subject><subject>Diarrhea - veterinary</subject><subject>Diseases</subject><subject>Drug resistance</subject><subject>Drug resistance in microorganisms</subject><subject>E coli</subject><subject>Enzymes</subject><subject>Farms</subject><subject>Feces</subject><subject>Feces - 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We conducted Shotgun metagenomic sequencing on samples from five groups of diarrheal mink and five groups of healthy mink. The microbiota α-diversity and Kyoto Encyclopedia of Genes and Genomes (KEGG) orthology did not show significant differences between the groups. However, significant differences were observed in microbiota β-diversity and the function of carbohydrate-active enzymes (CAZymes) between diarrheal and healthy mink. Specifically, The relative abundance of Firmicutes was lower, whereas that of Bacteroidetes was higher in diarrheal mink. Fusobacteria were enriched as invasive bacteria in the gut of diarrheal mink compared with healthy mink. In addition, Escherichia albertii was identified as a new bacterium in diarrheal mink. Regarding functions, nicotinate and nicotinamide metabolism and glycoside hydrolases 2 (GH2) family were the enhanced KEGG orthology and CAZymes in diarrheal mink. Furthermore, the diversity and number of antibiotic-resistant genes were significantly higher in the diarrheal mink group than in the healthy group. These findings enhance our understanding of the gut microbiota of adult mink and may lead to new approaches to the diagnosis and treatment of mink diarrhea.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>39475924</pmid><doi>10.1371/journal.pone.0312821</doi><tpages>e0312821</tpages><orcidid>https://orcid.org/0000-0002-0434-6055</orcidid><orcidid>https://orcid.org/0009-0005-4717-8329</orcidid><oa>free_for_read</oa></addata></record> |
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| identifier | ISSN: 1932-6203 |
| ispartof | PloS one, 2024-10, Vol.19 (10), p.e0312821 |
| issn | 1932-6203 1932-6203 |
| language | eng |
| recordid | cdi_plos_journals_3122530330 |
| source | MEDLINE; DOAJ Directory of Open Access Journals; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; PubMed Central; Free Full-Text Journals in Chemistry; Public Library of Science (PLoS) |
| subjects | Analysis Animals Antibiotic resistance Antibiotics Bacteria Bacteria - classification Bacteria - genetics Bacteria - isolation & purification Bacteroidetes - genetics Bacteroidetes - isolation & purification Biology and Life Sciences Carbohydrates Care and treatment Coliforms Diagnosis Diarrhea Diarrhea - microbiology Diarrhea - veterinary Diseases Drug resistance Drug resistance in microorganisms E coli Enzymes Farms Feces Feces - microbiology Gastrointestinal Microbiome - genetics Gene sequencing Genes Genomics Glycosidases Glycoside hydrolase Glycosides Intestinal microflora Medicine and Health Sciences Metagenome Metagenomics Metagenomics - methods Microbiomes Microbiota Microbiota (Symbiotic organisms) Microorganisms Mink - microbiology Minks Niacinamide Nicotinamide Orthology Physical Sciences Physiology Proteins Relative abundance Research and Analysis Methods Sample size Software Tetracycline Tetracyclines |
| title | Characterizing the gut microbiome of diarrheal mink under farmed conditions: A metagenomic analysis |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-02-12T14%3A04%3A31IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-gale_plos_&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Characterizing%20the%20gut%20microbiome%20of%20diarrheal%20mink%20under%20farmed%20conditions:%20A%20metagenomic%20analysis&rft.jtitle=PloS%20one&rft.au=Liu,%20Shuo&rft.date=2024-10-30&rft.volume=19&rft.issue=10&rft.spage=e0312821&rft.pages=e0312821-&rft.issn=1932-6203&rft.eissn=1932-6203&rft_id=info:doi/10.1371/journal.pone.0312821&rft_dat=%3Cgale_plos_%3EA814242046%3C/gale_plos_%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=3122530330&rft_id=info:pmid/39475924&rft_galeid=A814242046&rfr_iscdi=true |